← All datasets

ENCSR484LAB

ENCSR ENCODE
Export SRA CSV View on ENCODE

eCLIP experiment on K562 against SAFB

Organism: Homo sapiens
Experiment Types:
eCLIP
Status: released
Contact: Gene Yeo, UCSD

Relations

control:ENCSR111USM

Summary

eCLIP of SAFB in Homo sapiens K562

Overall Design

eCLIP experiment on K562 against SAFB

Analysis

View Data Processing
Analysis page is available for ENCSR484LAB.

Dataset Citations (2)

Principles of RNA processing from analysis of enhanced CLIP maps for 150 RNA binding proteins.
PMID 32252787 · 2020 · Genome biology
Eric L Van Nostrand, Gabriel A Pratt, Brian A Yee, Emily C Wheeler, Steven M Blue, Jasmine Mueller, Samuel S Park, Keri E Garcia, Chelsea Gelboin-Burkhart, Thai B Nguyen, Ines Rabano, Rebecca Stanton, Balaji Sundararaman, Ruth Wang, Xiang-Dong Fu, Brenton R Graveley, Gene W Yeo
A large-scale binding and functional map of human RNA-binding proteins.
PMID 32728246 · 2020 · Nature
Eric L Van Nostrand, Peter Freese, Gabriel A Pratt, Xiaofeng Wang, Xintao Wei, Rui Xiao, Steven M Blue, Jia-Yu Chen, Neal A L Cody, Daniel Dominguez, Sara Olson, Balaji Sundararaman, Lijun Zhan, Cassandra Bazile, Louis Philip Benoit Bouvrette, Julie Bergalet, Michael O Duff, Keri E Garcia, Chelsea Gelboin-Burkhart, Myles Hochman, Nicole J Lambert, Hairi Li, Michael P McGurk, Thai B Nguyen, Tsultrim Palden, Ines Rabano, Shashank Sathe, Rebecca Stanton, Amanda Su, Ruth Wang, Brian A Yee, Bing Zhou, Ashley L Louie, Stefan Aigner, Xiang-Dong Fu, Eric Lécuyer, Christopher B Burge, Brenton R Graveley, Gene W Yeo

ENCODE Metadata

Total file size: 5.6 GB
Assay: eCLIP
Target: SAFB
Biosample: Homo sapiens K562
Files: 26
Unique ENC file IDs: 26
File Formats
bigWig (8) bed (6) bam (4) bigBed (4) fastq (4)
Output types (5)
peaks (10) alignments (4) minus strand signal of unique reads (4) plus strand signal of unique reads (4) reads (4)

Linked Publications (2)

Principles of RNA processing from analysis of enhanced CLIP maps for 150 RNA binding proteins.
Genome biology · 2020
A large-scale binding and functional map of human RNA-binding proteins.
Nature · 2020

Data Files (26)

Accession File Name Stored Type Output Type Mapping Assembly Size Download
ENCFF722JMT ENCFF722JMT.bam bam (alignments); assembly: GRCh38 alignments GRCh38 822.0 MB link
ENCFF973VXO ENCFF973VXO.bam bam (alignments); assembly: GRCh38 alignments GRCh38 828.6 MB link
ENCFF251LGV ENCFF251LGV.bam bam (alignments); assembly: hg19 alignments hg19 829.0 MB link
ENCFF759SQV ENCFF759SQV.bam bam (alignments); assembly: hg19 alignments hg19 836.3 MB link
ENCFF067WCL ENCFF067WCL.bed bed (peaks); assembly: GRCh38 peaks GRCh38 2.3 MB link
ENCFF417KUY ENCFF417KUY.bed bed (peaks); assembly: GRCh38 peaks GRCh38 2.2 MB link
ENCFF953WTP ENCFF953WTP.bed bed (peaks); assembly: GRCh38 peaks GRCh38 11.4 KB link
ENCFF407GVQ ENCFF407GVQ.bed bed (peaks); assembly: hg19 peaks hg19 2.2 MB link
ENCFF639MAG ENCFF639MAG.bed bed (peaks); assembly: hg19 peaks hg19 2.3 MB link
ENCFF934PXE ENCFF934PXE.bed bed (peaks); assembly: hg19 peaks hg19 10.9 KB link
ENCFF397KME ENCFF397KME.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 3.4 MB link
ENCFF948MKY ENCFF948MKY.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 4.4 MB link
ENCFF831IUW ENCFF831IUW.bigBed bigBed (peaks); assembly: hg19 peaks hg19 3.3 MB link
ENCFF966QLX ENCFF966QLX.bigBed bigBed (peaks); assembly: hg19 peaks hg19 4.4 MB link
ENCFF662PGM ENCFF662PGM.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 35.9 MB link
ENCFF686FKT ENCFF686FKT.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 35.7 MB link
ENCFF749GVN ENCFF749GVN.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 36.4 MB link
ENCFF873GYP ENCFF873GYP.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 36.9 MB link
ENCFF514SFZ ENCFF514SFZ.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 37.1 MB link
ENCFF929GHQ ENCFF929GHQ.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 37.1 MB link
ENCFF127IJD ENCFF127IJD.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 37.7 MB link
ENCFF247JMS ENCFF247JMS.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 37.7 MB link
ENCFF198ESK ENCFF198ESK.fastq fastq (reads) reads 524.8 MB link
ENCFF484YDH ENCFF484YDH.fastq fastq (reads) reads 527.2 MB link
ENCFF607DEZ ENCFF607DEZ.fastq fastq (reads) reads 540.5 MB link
ENCFF983WHV ENCFF983WHV.fastq fastq (reads) reads 544.5 MB link